RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy168
(130 letters)
>gnl|CDD|215702 pfam00083, Sugar_tr, Sugar (and other) transporter.
Length = 449
Score = 68.9 bits (169), Expect = 1e-14
Identities = 37/123 (30%), Positives = 61/123 (49%), Gaps = 7/123 (5%)
Query: 1 MILLGTIMLGAGMGFCEGPIMSYLGEVCEPRIRGSLTLLSGVSGNGGALGIFFLNAITD- 59
M+++G +++G G+G + Y+ E+ ++RG+L L + G L + +
Sbjct: 103 MLIVGRVIVGLGVGGISVLVPMYISEIAPKKLRGALGSLYQLGITFGILVAAIIGLGLNK 162
Query: 60 ------WRTTTLISSVVPILAFAMILFLPESPTWLIYKGRMVDAEKSLRWLRGWSKKDKV 113
WR + V IL +LFLPESP WL+ KG++ +A L LRG S D+
Sbjct: 163 YSNSDGWRIPLGLQFVPAILLLIGLLFLPESPRWLVLKGKLEEARAVLAKLRGVSDVDQE 222
Query: 114 MVE 116
+ E
Sbjct: 223 IQE 225
>gnl|CDD|233165 TIGR00879, SP, MFS transporter, sugar porter (SP) family. This
model represent the sugar porter subfamily of the major
facilitator superfamily (pfam00083) [Transport and
binding proteins, Carbohydrates, organic alcohols, and
acids].
Length = 481
Score = 63.9 bits (156), Expect = 5e-13
Identities = 42/128 (32%), Positives = 67/128 (52%), Gaps = 7/128 (5%)
Query: 1 MILLGTIMLGAGMGFCEGPIMSYLGEVCEPRIRGSLTLLSGVSGNGGALGIFFLNAIT-- 58
M+++G ++LG G+G + YL E+ +RG+LT L ++ G L + +
Sbjct: 129 MLIVGRVLLGIGVGIASALVPMYLSEIAPKALRGALTSLYQLAITFGILVAYGFGSGKVS 188
Query: 59 -----DWRTTTLISSVVPILAFAMILFLPESPTWLIYKGRMVDAEKSLRWLRGWSKKDKV 113
WR + + L F + FLPESP WL+ KGR+ +A KSL LRG S +DK
Sbjct: 189 LNNTLGWRIPLGLQLIPAGLLFLGLFFLPESPRWLVGKGRVEEARKSLARLRGTSGEDKE 248
Query: 114 MVEFEQLK 121
+++ +L
Sbjct: 249 LLDELELI 256
>gnl|CDD|233176 TIGR00898, 2A0119, cation transport protein. [Transport and
binding proteins, Cations and iron carrying compounds].
Length = 505
Score = 47.7 bits (114), Expect = 2e-07
Identities = 24/59 (40%), Positives = 33/59 (55%), Gaps = 4/59 (6%)
Query: 48 ALGIFFLN----AITDWRTTTLISSVVPILAFAMILFLPESPTWLIYKGRMVDAEKSLR 102
+LG+ L I DWR L S+ L F + F+PESP WLI +GR+ +A K L+
Sbjct: 226 SLGLVLLPLVAYFIPDWRWLQLAVSLPTFLFFLLSWFVPESPRWLISQGRIEEALKILQ 284
>gnl|CDD|182225 PRK10077, xylE, D-xylose transporter XylE; Provisional.
Length = 479
Score = 41.2 bits (97), Expect = 4e-05
Identities = 36/131 (27%), Positives = 56/131 (42%), Gaps = 24/131 (18%)
Query: 7 IMLGAGMGFCEGPIMSYLGEVCEPRIRGSLTLLSGVSGNG-----GALGIFFLNAI---- 57
I+ G G+G Y+ E+ IRG L VS N G L ++F+N
Sbjct: 128 IIGGIGVGLASMLSPMYIAEIAPAHIRGKL-----VSFNQFAIIFGQLVVYFVNYFIARS 182
Query: 58 --------TDWRTTTLISSVVPILAFAMILFL-PESPTWLIYKGRMVDAEKSLRWLRGWS 108
WR S +P L F M+L+ PE+P +L+ +G+ AE LR + G +
Sbjct: 183 GDASWLNTDGWRYMFA-SEAIPALLFLMLLYFVPETPRYLMSRGKQEQAEGILRKIMGNT 241
Query: 109 KKDKVMVEFEQ 119
+ + E +
Sbjct: 242 LATQALQEIKH 252
>gnl|CDD|119392 cd06174, MFS, The Major Facilitator Superfamily (MFS) is a large
and diverse group of secondary transporters that
includes uniporters, symporters, and antiporters. MFS
proteins facilitate the transport across cytoplasmic or
internal membranes of a variety of substrates including
ions, sugar phosphates, drugs, neurotransmitters,
nucleosides, amino acids, and peptides. They do so using
the electrochemical potential of the transported
substrates. Uniporters transport a single substrate,
while symporters and antiporters transport two
substrates in the same or in opposite directions,
respectively, across membranes. MFS proteins are
typically 400 to 600 amino acids in length, and the
majority contain 12 transmembrane alpha helices (TMs)
connected by hydrophilic loops. The N- and C-terminal
halves of these proteins display weak similarity and may
be the result of a gene duplication/fusion event. Based
on kinetic studies and the structures of a few bacterial
superfamily members, GlpT (glycerol-3-phosphate
transporter), LacY (lactose permease), and EmrD
(multidrug transporter), MFS proteins are thought to
function through a single substrate binding site,
alternating-access mechanism involving a rocker-switch
type of movement. Bacterial members function primarily
for nutrient uptake, and as drug-efflux pumps to confer
antibiotic resistance. Some MFS proteins have medical
significance in humans such as the glucose transporter
Glut4, which is impaired in type II diabetes, and
glucose-6-phosphate transporter (G6PT), which causes
glycogen storage disease when mutated.
Length = 352
Score = 35.0 bits (81), Expect = 0.005
Identities = 22/86 (25%), Positives = 35/86 (40%), Gaps = 4/86 (4%)
Query: 1 MILLGTIMLGAGMGFCEGPIMSYLGEVCEPRIRGSLTLLSGVSGNGG----ALGIFFLNA 56
++L+G +LG G G + + E P+ RG L G L L
Sbjct: 89 LLLVGRFLLGLGGGALYPAAAALIAEWFPPKERGRALGLFSAGFGLGALLGPLLGGLLAE 148
Query: 57 ITDWRTTTLISSVVPILAFAMILFLP 82
WR LI +++ +L ++LFL
Sbjct: 149 SLGWRWLFLILAILGLLLALLLLFLL 174
Score = 34.6 bits (80), Expect = 0.008
Identities = 25/86 (29%), Positives = 45/86 (52%), Gaps = 4/86 (4%)
Query: 1 MILLGTIMLGAGMGFCEGPIMSYLGEVCEPRIRGSLTLLSGVSGN-GGALGIFFLNAITD 59
++L+ ++LG G+GF +++ E+ P RG+ + L G+ GGALG + D
Sbjct: 267 LLLVALLLLGFGLGFAFPALLTLASELAPPEARGTASGLFNTFGSLGGALGPLLAGLLLD 326
Query: 60 ---WRTTTLISSVVPILAFAMILFLP 82
+ LI + + +LA ++L LP
Sbjct: 327 TGGYGGVFLILAALALLAALLLLLLP 352
>gnl|CDD|233175 TIGR00895, 2A0115, benzoate transport. [Transport and binding
proteins, Carbohydrates, organic alcohols, and acids].
Length = 398
Score = 34.6 bits (80), Expect = 0.009
Identities = 24/89 (26%), Positives = 37/89 (41%), Gaps = 9/89 (10%)
Query: 9 LGAGMGFCEGPIMSYLGEVCEPRIRGSLTLLSGVSGN-GGALGIFF---LNAITDWRTTT 64
LG M + + E R RG+ L G A+G F L + WR+
Sbjct: 119 LGGLMPNL----NALVSEYAPKRFRGTAVGLMFCGYPIGAAVGGFLAGWLIPVFGWRSLF 174
Query: 65 LISSVVP-ILAFAMILFLPESPTWLIYKG 92
+ + P +L ++ FLPES +L+ K
Sbjct: 175 YVGGIAPLLLLLLLMRFLPESIDFLVSKR 203
>gnl|CDD|236927 PRK11551, PRK11551, putative 3-hydroxyphenylpropionic transporter
MhpT; Provisional.
Length = 406
Score = 30.3 bits (69), Expect = 0.23
Identities = 25/92 (27%), Positives = 42/92 (45%), Gaps = 9/92 (9%)
Query: 1 MILLGTIMLGAGMGFCEGPIMSYLGEVCEPRIRGSL--TLLSGVSGNGGAL----GIFFL 54
+L+ ++ G G+G +++ E PR+RG+ + GV GGAL G+
Sbjct: 105 SLLVARLLTGVGLGGALPNLIALTSEAVGPRLRGTAVSLMYCGVP-FGGALASVIGVL-A 162
Query: 55 NAITDWRTTTLISSVVPIL-AFAMILFLPESP 85
WR + V P+L ++ +LPES
Sbjct: 163 AGDAAWRHIFYVGGVGPLLLVPLLMRWLPESR 194
>gnl|CDD|219516 pfam07690, MFS_1, Major Facilitator Superfamily.
Length = 346
Score = 30.1 bits (68), Expect = 0.28
Identities = 24/85 (28%), Positives = 39/85 (45%), Gaps = 4/85 (4%)
Query: 1 MILLGTIMLGAGMGFCEGPIMSYLGEVCEPRIRGS-LTLLSGVSGNGGALGIF---FLNA 56
++L+ ++ G G G + + + P RG L LLS G G ALG L +
Sbjct: 87 LLLVLRVLQGLGGGALFPAAAALIADWFPPEERGRALGLLSAGFGLGAALGPLLGGLLAS 146
Query: 57 ITDWRTTTLISSVVPILAFAMILFL 81
+ WR LI +++ +LA + L
Sbjct: 147 LFGWRAAFLILAILALLAAVLAALL 171
>gnl|CDD|225121 COG2211, MelB, Na+/melibiose symporter and related transporters
[Carbohydrate transport and metabolism].
Length = 467
Score = 29.5 bits (67), Expect = 0.41
Identities = 12/57 (21%), Positives = 22/57 (38%), Gaps = 3/57 (5%)
Query: 37 TLLSGVSGNGGALGIFFLNAITDW---RTTTLISSVVPILAFAMILFLPESPTWLIY 90
LL SG G +G+ + + LI ++ + + ++ F P LI
Sbjct: 275 YLLLLASGAGLLIGLILWPRLVKKFGKKKLFLIGLLLLAVGYLLLYFTPAGSVVLIV 331
>gnl|CDD|184998 PRK15038, PRK15038, autoinducer 2 import system permease LsrD;
Provisional.
Length = 330
Score = 29.0 bits (65), Expect = 0.66
Identities = 18/49 (36%), Positives = 27/49 (55%), Gaps = 1/49 (2%)
Query: 34 GSLTLLSGVSGNGGALGI-FFLNAITDWRTTTLISSVVPILAFAMILFL 81
GS LLSG++G G GI F A TD+ ++ VP++ F + L +
Sbjct: 128 GSALLLSGMAGATGYEGIGGFPMAFTDFANLDVLGLPVPLIIFLICLLV 176
>gnl|CDD|222060 pfam13347, MFS_2, MFS/sugar transport protein. This family is part
of the major facilitator superfamily of membrane
transport proteins.
Length = 425
Score = 29.1 bits (66), Expect = 0.69
Identities = 17/93 (18%), Positives = 34/93 (36%), Gaps = 5/93 (5%)
Query: 1 MILLGTIMLGAGMGFCEGPIMSYLGEVCEPRIRGSLTLLSGVSGNGGALGIFFLNAITDW 60
++LL ++ M G ++ Y V G ++L + LG +
Sbjct: 226 ILLLLYLLNALAMAVRNGLLLYYFTYVLG--NAGLFSVLLLIGTIAAILGAPLWPWLAKR 283
Query: 61 ---RTTTLISSVVPILAFAMILFLPESPTWLIY 90
+ T L+ ++ + ++ FLP WL
Sbjct: 284 FGKKRTFLLGMLLAAIGLVLLFFLPPGSLWLFL 316
>gnl|CDD|238148 cd00244, AlgLyase, Alginate Lyase A1-III; enzymatically
depolymerizes alginate, a complex copolymer of
beta-D-mannuronate and alpha-L-guluronate, by cleaving
the beta-(1,4) glycosidic bond.
Length = 339
Score = 28.3 bits (63), Expect = 1.3
Identities = 16/81 (19%), Positives = 25/81 (30%), Gaps = 7/81 (8%)
Query: 34 GSLTLLSGVSGNGGALGIFFLNAITDWRTTTLISSVVPILAFAMILFLPESPTWLIYKGR 93
G L S G+ A A +R T + + ++ GR
Sbjct: 37 GELVFRSKYEGSDHARATLNEPAEKAFRDFTKDITTLERGYVKTVMQYMR-------DGR 89
Query: 94 MVDAEKSLRWLRGWSKKDKVM 114
V L L W+K D ++
Sbjct: 90 PVYLTCLLNMLDAWAKADALL 110
>gnl|CDD|223957 COG1026, COG1026, Predicted Zn-dependent peptidases,
insulinase-like [General function prediction only].
Length = 978
Score = 27.3 bits (61), Expect = 2.8
Identities = 18/61 (29%), Positives = 23/61 (37%), Gaps = 14/61 (22%)
Query: 75 FAMILFLPESPTWLIYKGRMVDAEKSLR------WLRGWSKKDKVMVEFEQLKVEWWMLR 128
F + L WL G D E SLR LR +K FE+L + + L
Sbjct: 395 FGLGLMFRSLYGWL-NGG---DPEDSLRFLDYLQNLREKLEKGPY---FEKL-IRKYFLD 446
Query: 129 N 129
N
Sbjct: 447 N 447
>gnl|CDD|220272 pfam09508, Lact_bio_phlase, Lacto-N-biose phosphorylase. The gene
which codes for this protein in gut-bacteria is located
in a novel putative operon for galactose metabolism. The
protein appears to be a carbohydrate-processing
phosphorolytic enzyme (EC:2.4.1.211), unlike either
glycoside hydrolases or glycoside lyase. Intestinal
colonisation by bifidobacteria is important for human
health, especially in pediatrics, because colonisation
seems to prevent infection by some pathogenic bacteria
that cause diarrhoea or other illnesses. The operon
seems to be involved in intestinal colonisation by
bifidobacteria mediated by metabolism of mucin sugars.
In addition, it may also resolve the question of the
nature of the bifidus factor in human milk as the
lacto-N-biose structure found in milk oligosaccharides.
Length = 716
Score = 26.6 bits (59), Expect = 5.3
Identities = 5/27 (18%), Positives = 12/27 (44%), Gaps = 1/27 (3%)
Query: 104 LRGWSKKDKVMVEFEQLKVEWWMLRNR 130
+ G+ K ++ + WW + +R
Sbjct: 89 MDGFFK-EQFEPNDDHDPKRWWEVVDR 114
>gnl|CDD|239291 cd02993, PDI_a_APS_reductase, PDIa family, 5'-Adenylylsulfate (APS)
reductase subfamily; composed of plant-type APS
reductases containing a C-terminal redox active TRX
domain and an N-terminal reductase domain which is part
of a superfamily that includes N type ATP PPases. APS
reductase catalyzes the reduction of activated sulfate
to sulfite, a key step in the biosynthesis of
sulfur-containing metabolites. Sulfate is first
activated by ATP sulfurylase, forming APS, which can be
phosphorylated to 3'-phosphoadenosine-5'-phosphosulfate
(PAPS). Depending on the organism, either APS or PAPS
can be used for sulfate reduction. Prokaryotes and fungi
use PAPS, whereas plants use both APS and PAPS. Since
plant-type APS reductase uses glutathione (GSH) as its
electron donor, the C-terminal domain may function like
glutaredoxin, a GSH-dependent member of the TRX
superfamily. The flow of reducing equivalents goes from
GSH -> C-terminal TRX domain -> N-terminal reductase
domain -> APS. Plant-type APS reductase shows no
homology to that of dissimilatory sulfate-reducing
bacteria, which is an iron-sulfur flavoenzyme. Also
included in the alignment is EYE2 from Chlamydomonas
reinhardtii, a protein required for eyespot assembly.
Length = 109
Score = 25.5 bits (56), Expect = 6.2
Identities = 9/31 (29%), Positives = 14/31 (45%), Gaps = 1/31 (3%)
Query: 75 FAMILFLPE-SPTWLIYKGRMVDAEKSLRWL 104
F ILF P+ S + Y D + L ++
Sbjct: 79 FPTILFFPKNSRQPIKYPSEQRDVDSLLMFV 109
>gnl|CDD|130366 TIGR01299, synapt_SV2, synaptic vesicle protein SV2. This model
describes a tightly conserved subfamily of the larger
family of sugar (and other) transporters described by
PFAM model pfam00083. Members of this subfamily include
closely related forms SV2A and SV2B of synaptic vesicle
protein from vertebrates and a more distantly related
homolog (below trusted cutoff) from Drosophila
melanogaster. Members are predicted to have two sets of
six transmembrane helices.
Length = 742
Score = 26.1 bits (57), Expect = 6.7
Identities = 10/38 (26%), Positives = 20/38 (52%)
Query: 60 WRTTTLISSVVPILAFAMILFLPESPTWLIYKGRMVDA 97
WR ++ + + A + F+PESP + + G+ +A
Sbjct: 333 WRVFVIVCAFPCVFAIGALTFMPESPRFFLENGKHDEA 370
>gnl|CDD|145440 pfam02286, Dehydratase_LU, Dehydratase large subunit. This family
contains the large subunit of the trimeric diol
dehydratases and glycerol dehydratases. These enzymes
are produced by some enterobacteria in response to
growth substances.
Length = 554
Score = 26.2 bits (58), Expect = 6.8
Identities = 19/48 (39%), Positives = 22/48 (45%), Gaps = 11/48 (22%)
Query: 10 GAG----MGFCEGPIMSYLGEVCEPRIRGSLTLLSGVSG--NGGALGI 51
GAG MG+ EG M YL C +T +GV G NGG I
Sbjct: 261 GAGSEVLMGYAEGKSMLYLEARCI-----YITKAAGVQGLQNGGVSCI 303
>gnl|CDD|221270 pfam11855, DUF3375, Protein of unknown function (DUF3375). This
family of proteins are functionally uncharacterized.
This protein is found in bacteria. Proteins in this
family are typically between 479 to 499 amino acids in
length.
Length = 471
Score = 25.8 bits (57), Expect = 8.6
Identities = 10/32 (31%), Positives = 16/32 (50%), Gaps = 6/32 (18%)
Query: 96 DAEKSLRWLRGWSKKDKVMVE------FEQLK 121
AE++L +L ++D V E FE L+
Sbjct: 98 AAERALDFLDRLEERDFVGTESRLLTVFELLR 129
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.326 0.141 0.457
Gapped
Lambda K H
0.267 0.0759 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,826,631
Number of extensions: 611835
Number of successful extensions: 1017
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1003
Number of HSP's successfully gapped: 75
Length of query: 130
Length of database: 10,937,602
Length adjustment: 86
Effective length of query: 44
Effective length of database: 7,123,158
Effective search space: 313418952
Effective search space used: 313418952
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 53 (24.1 bits)